Literature DB >> 29875396

BE-PLUS: a new base editing tool with broadened editing window and enhanced fidelity.

Wen Jiang1, Songjie Feng2,3,4, Shisheng Huang2, Wenxia Yu2, Guanglei Li2, Guang Yang2, Yajing Liu2,3,4, Yu Zhang2, Lei Zhang3,4, Yu Hou1, Jia Chen2, Jieping Chen5, Xingxu Huang6.   

Abstract

Base editor (BE), containing a cytidine deaminase and catalytically defective Cas9, has been widely used to perform base editing. However, the narrow editing window of BE limits its utility. Here, we developed a new editing technology named as base editor for programming larger C to U (T) scope (BE-PLUS) by fusing 10 copies of GCN4 peptide to nCas9(D10A) for recruiting scFv-APOBEC-UGI-GB1 to the target sites. The new system achieves base editing with a broadened window, resulting in an increased genome-targeting scope. Interestingly, the new system yielded much fewer unwanted indels and non-C-to-T conversions. We also demonstrated its potential use in gene disruption across the whole genome through induction of stop codons (iSTOP). Taken together, the BE-PLUS system offers a new editing tool with increased editing window and enhanced fidelity.

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Year:  2018        PMID: 29875396      PMCID: PMC6082914          DOI: 10.1038/s41422-018-0052-4

Source DB:  PubMed          Journal:  Cell Res        ISSN: 1001-0602            Impact factor:   25.617


  35 in total

1.  Precise Editing of a Target Base in the Rice Genome Using a Modified CRISPR/Cas9 System.

Authors:  Yuming Lu; Jian-Kang Zhu
Journal:  Mol Plant       Date:  2016-12-06       Impact factor: 13.164

2.  Correction of a pathogenic gene mutation in human embryos.

Authors:  Hong Ma; Nuria Marti-Gutierrez; Sang-Wook Park; Jun Wu; Yeonmi Lee; Keiichiro Suzuki; Amy Koski; Dongmei Ji; Tomonari Hayama; Riffat Ahmed; Hayley Darby; Crystal Van Dyken; Ying Li; Eunju Kang; A-Reum Park; Daesik Kim; Sang-Tae Kim; Jianhui Gong; Ying Gu; Xun Xu; David Battaglia; Sacha A Krieg; David M Lee; Diana H Wu; Don P Wolf; Stephen B Heitner; Juan Carlos Izpisua Belmonte; Paula Amato; Jin-Soo Kim; Sanjiv Kaul; Shoukhrat Mitalipov
Journal:  Nature       Date:  2017-08-02       Impact factor: 49.962

3.  CRISPR-Based Technologies for the Manipulation of Eukaryotic Genomes.

Authors:  Alexis C Komor; Ahmed H Badran; David R Liu
Journal:  Cell       Date:  2017-04-20       Impact factor: 41.582

4.  CRISPR-STOP: gene silencing through base-editing-induced nonsense mutations.

Authors:  Cem Kuscu; Mahmut Parlak; Turan Tufan; Jiekun Yang; Karol Szlachta; Xiaolong Wei; Rashad Mammadov; Mazhar Adli
Journal:  Nat Methods       Date:  2017-06-05       Impact factor: 28.547

5.  Highly efficient RNA-guided base editing in mouse embryos.

Authors:  Kyoungmi Kim; Seuk-Min Ryu; Sang-Tae Kim; Gayoung Baek; Daesik Kim; Kayeong Lim; Eugene Chung; Sunghyun Kim; Jin-Soo Kim
Journal:  Nat Biotechnol       Date:  2017-02-27       Impact factor: 54.908

6.  Targeted nucleotide editing using hybrid prokaryotic and vertebrate adaptive immune systems.

Authors:  Keiji Nishida; Takayuki Arazoe; Nozomu Yachie; Satomi Banno; Mika Kakimoto; Mayura Tabata; Masao Mochizuki; Aya Miyabe; Michihiro Araki; Kiyotaka Y Hara; Zenpei Shimatani; Akihiko Kondo
Journal:  Science       Date:  2016-08-04       Impact factor: 47.728

7.  The Gam protein of bacteriophage Mu is an orthologue of eukaryotic Ku.

Authors:  Fabrizio d'Adda di Fagagna; Geoffrey R Weller; Aidan J Doherty; Stephen P Jackson
Journal:  EMBO Rep       Date:  2003-01       Impact factor: 8.807

8.  CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering.

Authors:  Prashant Mali; John Aach; P Benjamin Stranges; Kevin M Esvelt; Mark Moosburner; Sriram Kosuri; Luhan Yang; George M Church
Journal:  Nat Biotechnol       Date:  2013-08-01       Impact factor: 54.908

9.  Correction of β-thalassemia mutant by base editor in human embryos.

Authors:  Puping Liang; Chenhui Ding; Hongwei Sun; Xiaowei Xie; Yanwen Xu; Xiya Zhang; Ying Sun; Yuanyan Xiong; Wenbin Ma; Yongxiang Liu; Yali Wang; Jianpei Fang; Dan Liu; Zhou Songyang; Canquan Zhou; Junjiu Huang
Journal:  Protein Cell       Date:  2017-09-23       Impact factor: 14.870

10.  Enhanced base editing by co-expression of free uracil DNA glycosylase inhibitor.

Authors:  Lijie Wang; Wei Xue; Lei Yan; Xiaosa Li; Jia Wei; Miaomiao Chen; Jing Wu; Bei Yang; Li Yang; Jia Chen
Journal:  Cell Res       Date:  2017-08-29       Impact factor: 25.617

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  37 in total

Review 1.  Single-nucleotide editing: From principle, optimization to application.

Authors:  Jinling Tang; Trevor Lee; Tao Sun
Journal:  Hum Mutat       Date:  2019-09-15       Impact factor: 4.878

2.  Genome, Epigenome, and Transcriptome Editing via Chemical Modification of Nucleobases in Living Cells.

Authors:  Brodie L Ranzau; Alexis C Komor
Journal:  Biochemistry       Date:  2018-12-12       Impact factor: 3.162

3.  Got mutation? 'Base editors' fix genomes one nucleotide at a time.

Authors:  Sandeep Ravindran
Journal:  Nature       Date:  2019-11       Impact factor: 49.962

4.  Programmable C-to-U RNA editing using the human APOBEC3A deaminase.

Authors:  Xinxin Huang; Junjun Lv; Yongqin Li; Shaoshuai Mao; Zhifang Li; Zhengyu Jing; Yidi Sun; Xiaoming Zhang; Shengxi Shen; Xinxin Wang; Minghui Di; Jianyang Ge; Xingxu Huang; Erwei Zuo; Tian Chi
Journal:  EMBO J       Date:  2020-10-15       Impact factor: 11.598

5.  Recent advances of genome editing and related technologies in China.

Authors:  Wen Sun; Haoyi Wang
Journal:  Gene Ther       Date:  2020-08-03       Impact factor: 5.250

Review 6.  Base Editors: Modular Tools for the Introduction of Point Mutations in Living Cells.

Authors:  Mallory Evanoff; Alexis C Komor
Journal:  Emerg Top Life Sci       Date:  2019-09-10

7.  In situ CRISPR-Cas9 base editing for the development of genetically engineered mouse models of breast cancer.

Authors:  Stefano Annunziato; Catrin Lutz; Linda Henneman; Jinhyuk Bhin; Kim Wong; Bjørn Siteur; Bas van Gerwen; Renske de Korte-Grimmerink; Maria Paz Zafra; Emma M Schatoff; Anne Paulien Drenth; Eline van der Burg; Timo Eijkman; Siddhartha Mukherjee; Katharina Boroviak; Lodewyk Fa Wessels; Marieke van de Ven; Ivo J Huijbers; David J Adams; Lukas E Dow; Jos Jonkers
Journal:  EMBO J       Date:  2020-01-13       Impact factor: 11.598

8.  Increasing the efficiency and targeting range of cytidine base editors through fusion of a single-stranded DNA-binding protein domain.

Authors:  Xiaohui Zhang; Liang Chen; Biyun Zhu; Liren Wang; Caiyu Chen; Mengjia Hong; Yifan Huang; Huiying Li; Honghui Han; Bailian Cai; Weishi Yu; Shuming Yin; Lei Yang; Zuozhen Yang; Meizhen Liu; Ying Zhang; Zhiyong Mao; Yuxuan Wu; Mingyao Liu; Dali Li
Journal:  Nat Cell Biol       Date:  2020-05-11       Impact factor: 28.824

Review 9.  Base editing: precision chemistry on the genome and transcriptome of living cells.

Authors:  Holly A Rees; David R Liu
Journal:  Nat Rev Genet       Date:  2018-12       Impact factor: 53.242

10.  Genome-wide interrogation of gene functions through base editor screens empowered by barcoded sgRNAs.

Authors:  Ping Xu; Zhiheng Liu; Ying Liu; Huazheng Ma; Yiyuan Xu; Ying Bao; Shiyou Zhu; Zhongzheng Cao; Zeguang Wu; Zhuo Zhou; Wensheng Wei
Journal:  Nat Biotechnol       Date:  2021-06-21       Impact factor: 54.908

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